CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : Mut = L41del

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORF	CodonNum	Mut	ORF1abMut	MutType	RefCodon	MutCodon	AACount	CodonCount	CodonProp	Genome Position
ORF3a	41	L41del		del	CTC	---	860	860	1	25513-25515

Details of the mutation L41del within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORF	CodonNum	Mut	RefCodon	MutCodon	CodonCount	AACount	Lineage	LineageCodonProp
ORF3a	41	L41del	CTC	---	860	860	All	0.000164
ORF3a	41	L41del	CTC	---	192	192	AY.26	0.005436
ORF3a	41	L41del	CTC	---	153	153	B.1.630	0.801047
ORF3a	41	L41del	CTC	---	69	69	AY.43	0.000306
ORF3a	41	L41del	CTC	---	63	63	B.1.1.7	0.000056
ORF3a	41	L41del	CTC	---	54	54	B.1.177.82	0.025776
ORF3a	41	L41del	CTC	---	36	36	B.1.177	0.000474
ORF3a	41	L41del	CTC	---	30	30	AY.4	0.000047
ORF3a	41	L41del	CTC	---	26	26	B.1.617.2	0.000098
ORF3a	41	L41del	CTC	---	23	23	B.1.1	0.000417
ORF3a	41	L41del	CTC	---	21	21	AY.25	0.000126
ORF3a	41	L41del	CTC	---	14	14	P.1	0.000221
ORF3a	41	L41del	CTC	---	13	13	AY.98.1	0.00063
ORF3a	41	L41del	CTC	---	11	11	AY.3	0.000109
ORF3a	41	L41del	CTC	---	9	9	B.1.258	0.000599
ORF3a	41	L41del	CTC	---	8	8	AY.103	0.00005
ORF3a	41	L41del	CTC	---	7	7	AY.39	0.000173
ORF3a	41	L41del	CTC	---	6	6	AY.44	0.000037
ORF3a	41	L41del	CTC	---	5	5	B.1	0.000046
ORF3a	41	L41del	CTC	---	5	5	B.1.438.1	0.000536
ORF3a	41	L41del	CTC	---	4	4	AY.4.2	0.000087
ORF3a	41	L41del	CTC	---	4	4	B.1.2	0.000035
ORF3a	41	L41del	CTC	---	4	4	P.1.9	0.019231
ORF3a	41	L41del	CTC	---	3	3	AY.120	0.000112
ORF3a	41	L41del	CTC	---	3	3	AY.20	0.000117
ORF3a	41	L41del	CTC	---	3	3	AY.39.1	0.000119
ORF3a	41	L41del	CTC	---	3	3	AY.4.5	0.000322
ORF3a	41	L41del	CTC	---	3	3	AY.40	0.002893
ORF3a	41	L41del	CTC	---	3	3	AY.45	0.000365
ORF3a	41	L41del	CTC	---	3	3	AY.98	0.000237
ORF3a	41	L41del	CTC	---	3	3	B.1.160.24	0.013274
ORF3a	41	L41del	CTC	---	3	3	B.1.427	0.000151
ORF3a	41	L41del	CTC	---	3	3	U.3	0.011583
ORF3a	41	L41del	CTC	---	2	2	AY.13	0.000322
ORF3a	41	L41del	CTC	---	2	2	AY.29	0.000032
ORF3a	41	L41del	CTC	---	2	2	AY.46	0.000208
ORF3a	41	L41del	CTC	---	2	2	AY.46.2	0.001271
ORF3a	41	L41del	CTC	---	2	2	AY.6	0.000082
ORF3a	41	L41del	CTC	---	2	2	AY.67	0.000929
ORF3a	41	L41del	CTC	---	2	2	AY.75	0.000112
ORF3a	41	L41del	CTC	---	2	2	AY.81	0.003984
ORF3a	41	L41del	CTC	---	2	2	AY.9.2	0.000073
ORF3a	41	L41del	CTC	---	2	2	B.1.1.519	0.000079
ORF3a	41	L41del	CTC	---	2	2	B.1.160.33	0.00885
ORF3a	41	L41del	CTC	---	2	2	B.1.177.60	0.000437
ORF3a	41	L41del	CTC	---	2	2	B.1.471	0.005464
ORF3a	41	L41del	CTC	---	2	2	B.1.525	0.000226
ORF3a	41	L41del	CTC	---	2	2	B.1.621	0.000177
ORF3a	41	L41del	CTC	---	2	2	D.2	0.00015
ORF3a	41	L41del	CTC	---	1	1	A.2.3	0.004739
ORF3a	41	L41del	CTC	---	1	1	AH.3	0.003802
ORF3a	41	L41del	CTC	---	1	1	AY.102	0.000027
ORF3a	41	L41del	CTC	---	1	1	AY.111	0.000183
ORF3a	41	L41del	CTC	---	1	1	AY.113	0.000142
ORF3a	41	L41del	CTC	---	1	1	AY.114	0.000231
ORF3a	41	L41del	CTC	---	1	1	AY.117	0.000085
ORF3a	41	L41del	CTC	---	1	1	AY.118	0.000063
ORF3a	41	L41del	CTC	---	1	1	AY.23	0.00007
ORF3a	41	L41del	CTC	---	1	1	AY.28	0.00189
ORF3a	41	L41del	CTC	---	1	1	AY.29.1	0.000221
ORF3a	41	L41del	CTC	---	1	1	AY.33	0.000067
ORF3a	41	L41del	CTC	---	1	1	AY.42	0.00004
ORF3a	41	L41del	CTC	---	1	1	AY.5	0.000021
ORF3a	41	L41del	CTC	---	1	1	AY.59	0.00053
ORF3a	41	L41del	CTC	---	1	1	AY.65	0.000533
ORF3a	41	L41del	CTC	---	1	1	AY.7	0.000196
ORF3a	41	L41del	CTC	---	1	1	AY.75.1	0.00018
ORF3a	41	L41del	CTC	---	1	1	AY.84	0.000437
ORF3a	41	L41del	CTC	---	1	1	AY.90	0.000684
ORF3a	41	L41del	CTC	---	1	1	AY.91	0.00073
ORF3a	41	L41del	CTC	---	1	1	AY.93	0.000273
ORF3a	41	L41del	CTC	---	1	1	AY.99.2	0.000092
ORF3a	41	L41del	CTC	---	1	1	B	0.000128
ORF3a	41	L41del	CTC	---	1	1	B.1.1.222	0.000204
ORF3a	41	L41del	CTC	---	1	1	B.1.1.225	0.007194
ORF3a	41	L41del	CTC	---	1	1	B.1.1.28	0.000311
ORF3a	41	L41del	CTC	---	1	1	B.1.1.33	0.000421
ORF3a	41	L41del	CTC	---	1	1	B.1.1.39	0.00051
ORF3a	41	L41del	CTC	---	1	1	B.1.1.409	0.002833
ORF3a	41	L41del	CTC	---	1	1	B.1.160	0.000031
ORF3a	41	L41del	CTC	---	1	1	B.1.177.6	0.000977
ORF3a	41	L41del	CTC	---	1	1	B.1.221	0.000071
ORF3a	41	L41del	CTC	---	1	1	B.1.241	0.000812
ORF3a	41	L41del	CTC	---	1	1	B.1.563	0.016949
ORF3a	41	L41del	CTC	---	1	1	B.1.637	0.000073
ORF3a	41	L41del	CTC	---	1	1	B.1.638	0.052632
ORF3a	41	L41del	CTC	---	1	1	C.37	0.000116
ORF3a	41	L41del	CTC	---	1	1	P.1.14	0.000048
ORF3a	41	L41del	CTC	---	1	1	P.1.15	0.000232
ORF3a	41	L41del	CTC	---	1	1	P.1.16	0.000374

CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk

CoV-GLUE uses sequence data from GISAID. GISAID data provided via this web application is subject to GISAID's Terms and Conditions.